genome.fa.s8620.2.7.7.80.10.50.1000.20.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   

This is table  20  of  64  ( 7674 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3822261--3822323	17	3.6	17	82	4	81	44	6	12	36	1.68
3822266--3822312	18	2.7	18	86	3	69	44	6	12	36	1.68
3822261--3822338	17	4.5	17	76	7	68	42	6	12	38	1.69
3822438--3822476	20	2.0	20	84	0	51	43	15	10	30	1.80
3823305--3823348	21	2.1	21	83	8	54	29	27	2	40	1.68
3824979--3825022	21	2.0	22	82	4	54	29	9	22	38	1.85
3825752--3825814	17	3.6	17	87	4	90	41	7	14	36	1.75
3825757--3825829	35	2.1	35	87	5	103	38	8	15	38	1.77
3825757--3825829	17	4.2	18	82	8	71	38	8	15	38	1.77
3825929--3825967	20	2.0	20	84	0	51	41	17	10	30	1.83
3828499--3828560	17	3.6	17	82	4	79	41	8	14	35	1.75
3828504--3828550	18	2.7	18	86	3	69	42	8	14	34	1.77
3833996--3834039	21	2.1	21	83	8	54	29	27	2	40	1.68
3835664--3835707	21	2.0	22	82	4	54	29	9	22	38	1.85
3836446--3836508	17	3.6	17	82	4	81	42	7	14	34	1.75
3836451--3836497	18	2.7	18	86	3	69	42	8	14	34	1.77
3843867--3843910	21	2.0	22	82	4	54	29	9	22	38	1.85
3844647--3844724	18	4.5	17	80	4	84	41	7	12	38	1.72
3844645--3844724	35	2.3	35	78	4	90	41	7	12	38	1.71
3845740--3845783	21	2.1	21	83	8	54	29	27	2	40	1.68
3847233--3847276	21	2.0	22	82	4	54	29	9	22	38	1.85
3848013--3848075	17	3.6	17	80	4	72	44	7	12	34	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3848190--3848228	20	2.0	20	84	0	51	41	17	10	30	1.83
3850488--3850520	16	2.1	16	100	0	66	45	18	30	6	1.73
3855304--3855539	55	4.3	55	84	2	298	27	20	18	33	1.96
3855304--3855539	109	2.2	109	86	3	332	27	20	18	33	1.96
3855875--3855918	22	2.0	21	83	12	54	31	22	13	31	1.93
3863273--3863317	9	5.0	9	83	0	63	55	2	11	31	1.47
3867243--3867384	26	5.9	26	75	19	155	24	23	9	42	1.83
3867253--3867386	46	2.9	46	89	0	214	23	25	8	41	1.83
3867452--3867486	2	17.5	2	100	0	70	48	0	0	51	1.00
3867598--3867943	81	4.3	81	91	0	521	27	21	13	37	1.91
3867893--3868352	68	6.8	68	89	0	677	28	23	15	32	1.95
3869021--3869066	19	2.4	19	88	0	74	23	39	6	30	1.80
3869193--3869245	14	3.8	14	85	9	72	15	15	20	49	1.80
3872633--3872711	20	3.7	20	73	15	77	21	24	10	44	1.83
3872949--3873250	81	3.7	81	83	3	376	28	20	11	38	1.88
3873200--3873591	68	5.8	68	88	0	570	28	22	14	33	1.94
3874232--3874456	95	2.4	95	84	1	281	25	24	14	34	1.94
3876041--3876082	13	3.3	13	80	6	50	16	14	16	52	1.75
3878745--3878946	101	2.0	101	100	0	404	25	16	17	39	1.91
3889646--3889696	21	2.4	21	86	0	66	23	19	17	39	1.92
3889744--3889794	21	2.4	21	83	6	68	25	17	13	43	1.86
3889776--3889835	19	2.9	20	78	9	59	31	18	13	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3891548--3891593	19	2.3	20	92	3	76	36	17	8	36	1.81
3894313--3894360	21	2.3	21	85	0	69	31	14	12	41	1.83
3894355--3894421	20	3.4	20	85	2	82	32	19	8	38	1.83
3901901--3901966	28	2.4	28	94	0	123	31	16	30	21	1.95
3901951--3902134	55	3.3	55	77	3	208	29	22	23	24	1.99
3905617--3905813	96	2.1	96	99	0	387	19	19	30	30	1.96
3908786--3908968	75	2.4	75	81	0	213	51	15	3	28	1.61
3913009--3913053	17	2.6	18	82	3	65	15	48	22	13	1.79
3913056--3913240	29	6.3	29	78	10	153	34	4	17	43	1.71
3913058--3913232	58	3.0	58	76	9	176	34	5	17	42	1.72
3918249--3918306	30	1.9	30	86	13	84	36	10	18	34	1.85
3920218--3920285	20	3.4	20	95	0	127	8	26	36	27	1.86
3920532--3920593	17	3.6	17	91	2	97	17	48	20	12	1.80
3920595--3920815	29	7.7	29	87	6	308	35	3	18	42	1.67
3920593--3920815	86	2.6	87	87	6	312	35	4	17	42	1.69
3920595--3920816	57	3.9	57	87	4	297	35	3	18	42	1.68
3924666--3924716	24	2.1	23	82	7	57	41	1	7	49	1.43
3925386--3925530	41	3.4	41	76	15	132	23	21	18	36	1.95
3925441--3925541	20	5.0	20	82	9	125	23	19	17	38	1.93
3928737--3928791	19	2.8	20	83	2	67	38	21	21	18	1.94
3928799--3928835	19	1.9	19	94	0	65	8	21	21	48	1.76
3928926--3929301	94	4.1	93	92	2	580	47	18	11	22	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3930956--3931038	20	4.2	20	77	10	98	48	15	22	13	1.80
3930954--3931064	40	3.0	37	80	13	122	46	17	23	12	1.82
3931063--3931180	19	6.7	19	70	19	94	10	21	22	45	1.81
3931079--3931174	33	2.9	33	92	1	156	10	22	22	43	1.84
3931737--3931782	21	2.2	21	88	0	65	36	17	28	17	1.92
3934220--3934249	2	15.0	2	100	0	60	50	0	0	50	1.00
3935488--3935845	178	2.0	179	98	1	693	38	17	11	32	1.85
3937179--3937247	31	2.2	31	82	7	77	18	10	4	66	1.38
3937242--3937306	32	2.0	32	93	0	112	27	9	9	53	1.63
3938570--3938606	15	2.5	16	83	16	53	37	0	5	56	1.22
3941480--3941661	89	2.0	89	100	0	364	44	12	13	30	1.80
3942153--3942199	15	3.1	16	75	9	53	63	4	4	27	1.31
3942806--3942994	103	1.8	102	82	3	245	37	10	17	34	1.83
3950306--3950421	42	2.8	41	75	8	101	32	21	18	26	1.97
3950470--3950757	60	5.1	58	78	8	234	43	18	8	30	1.79
3950509--3950674	60	2.8	60	88	2	239	42	18	9	28	1.82
3950654--3950756	55	1.9	54	82	5	129	44	16	7	31	1.76
3954230--3954463	116	2.0	117	99	0	461	27	22	17	32	1.96
3960353--3960401	17	2.7	18	84	9	73	12	46	4	36	1.60
3961097--3961137	19	2.2	19	86	0	55	19	7	48	24	1.74
3962200--3962242	21	2.0	22	82	13	54	11	11	44	32	1.77
3962352--3962402	3	17.7	3	84	8	61	66	1	0	31	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3964067--3964223	51	3.1	51	88	0	215	36	17	21	24	1.94
3964192--3964669	45	10.6	45	79	4	448	41	18	17	22	1.90
3964192--3964669	90	5.3	90	84	3	547	41	18	17	22	1.90
3964193--3964669	135	3.5	132	80	7	496	41	18	17	22	1.90
3964646--3964848	38	5.3	38	83	2	255	41	16	16	24	1.89
3964649--3964870	76	2.9	76	85	2	284	42	16	16	24	1.88
3964652--3964870	38	5.8	38	78	6	201	42	16	15	24	1.87
3966730--3966784	22	2.4	22	90	6	83	3	21	1	72	1.09
3975411--3975462	3	17.3	3	95	0	95	69	0	0	30	0.89
3976538--3976580	21	2.0	21	86	9	59	51	0	0	48	1.00
3978241--3978271	2	15.5	2	100	0	62	48	0	0	51	1.00
3978472--3978524	26	2.0	26	82	7	63	58	3	7	30	1.43
3978867--3978891	9	2.8	9	100	0	50	32	0	0	68	0.90
3978862--3978905	17	2.5	18	81	7	54	36	0	0	63	0.95
3978959--3979002	19	2.3	19	88	4	61	31	0	2	65	1.05
3978979--3979061	29	2.8	28	79	18	80	30	0	3	66	1.09
3978921--3979057	73	1.9	68	81	10	159	30	0	3	65	1.10
3982977--3983009	13	2.5	13	86	13	50	36	12	3	48	1.56
3983016--3983058	22	2.0	22	85	0	59	39	13	4	41	1.66
3983533--3983576	21	2.1	21	91	0	70	27	29	20	22	1.99
3983540--3983583	21	2.1	21	91	0	70	29	27	20	22	1.99
3983732--3983762	6	5.2	6	100	0	62	32	51	16	0	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3984360--3984499	42	3.3	42	92	0	244	35	22	20	22	1.96
3984360--3984505	21	6.9	20	73	16	118	34	21	21	21	1.96
3989556--3989603	22	2.2	22	88	0	69	39	22	14	22	1.91
3990114--3990183	22	3.3	21	72	16	72	50	1	4	44	1.30
3996744--3996920	90	2.0	89	94	1	309	36	11	6	45	1.67
4009780--4009838	29	2.0	29	100	0	118	23	13	13	49	1.78
4014463--4014522	30	2.0	30	100	0	120	23	13	13	50	1.77
4025880--4025921	23	1.9	22	90	9	68	23	33	23	19	1.97
4025884--4025943	21	2.7	22	84	5	68	23	36	23	16	1.94
4026305--4026365	20	2.9	20	85	7	59	24	32	26	16	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64